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  • Data Science Centre, EMBL
  • Heidelberg, Germany
  • 02:09 (UTC +02:00)
  • X @weber8thomas

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weber8thomas/README.md

Hello, I'm Thomas Weber! πŸ‘‹

I'm a Scientific Workflows Developer in the Data Science Centre of the European Molecular Biology Laboratory (EMBL) in Heidelberg, and a former ARISE fellow. I hold a PhD in bioinformatics and build reproducible, scalable data-analysis workflows and interactive tools to drive research and innovation. I lead development at depictio (interactive bioinformatics dashboards) and run a homelab-first setup (with local-first AI as the bonus) under theagentattic.

πŸ‘¨β€πŸ’» Technologies & Interests

  • Scientific Workflows: Designing reproducible, portable pipelines with Snakemake, Nextflow, and Galaxy
  • Containerization & Orchestration: Docker, Singularity/Apptainer, and Kubernetes
  • Interactive Data Visualization: Building analytics dashboards with Plotly Dash and React
  • Local-First AI: AI agents, MCP servers, and LLM tooling with LangChain and Ollama
  • Home Automation & DIY Tech: Home Assistant, Zigbee, ESPhome, and 3D printing
  • Self-Hosted Infrastructure: Running a Proxmox homelab (Home Assistant, Immich, Plex, Bitwarden, Authentik, OctoPrint & more), with configs and automation open-sourced across theagentattic (7 repos and counting)

🌟 Highlighted Projects

depictio/depictio friendsofstrandseq/mosaicatcher-pipeline

🏒 Organisations

depictio
@depictio

Bioinformatics web-platform for interactive dashboard creation
theagentattic
@theagentattic

Homelab-first infrastructure, with local-first AI agents & MCP servers as a bonus

⚑ GitHub Activity

Contribution Snake

github contribution grid snake animation

πŸ“« How to Reach Me

X LinkedIn ORCID Google Scholar Email

GitHub followers

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  1. depictio/depictio depictio/depictio Public

    Bioinformatics web-platform visualisation dashboard creation

    Python 47 4

  2. friendsofstrandseq/mosaicatcher-pipeline friendsofstrandseq/mosaicatcher-pipeline Public

    Integrated workflow for SV calling from single-cell Strand-seq data

    Jupyter Notebook 26 12